Uses of Enum
com.compomics.util.experiment.biology.modifications.ModificationCategory

Packages that use ModificationCategory

Package	Description
com.compomics.util.experiment.biology.modifications
com.compomics.util.parameters.identification.tool_specific	Parameters settings for the search algorithms.

Uses of ModificationCategory in com.compomics.util.experiment.biology.modifications

Methods in com.compomics.util.experiment.biology.modifications that return ModificationCategory

Modifier and Type	Method	Description
ModificationCategory	Modification.getCategory()	Returns the modification category.
static ModificationCategory	ModificationCategory.valueOf(String name)	Returns the enum constant of this type with the specified name.
static ModificationCategory[]	ModificationCategory.values()	Returns an array containing the constants of this enum type, in the order they are declared.

Methods in com.compomics.util.experiment.biology.modifications with parameters of type ModificationCategory

Modifier and Type	Method	Description
ArrayList<String>	ModificationFactory.getModifications(ModificationCategory... modCategories)	Returns the names of all modifications in the given categories.
void	Modification.setCategory(ModificationCategory category)	Set the modification category.

Constructors in com.compomics.util.experiment.biology.modifications with parameters of type ModificationCategory

Modifier	Constructor	Description
	Modification(ModificationType modificationType, String name, Double mass, ArrayList<String> residues, ModificationCategory category)	Simple constructor for a modification.
	Modification(ModificationType modificationType, String name, String shortName, AtomChain atomChainAdded, AtomChain atomChainRemoved, AminoAcidPattern aminoAcidPattern, ModificationCategory category)	Constructor for a reference modification.
	Modification(ModificationType modificationType, String name, String shortName, AtomChain atomChainAdded, AtomChain atomChainRemoved, AminoAcidPattern aminoAcidPattern, CvTerm unimodCvTerm, CvTerm psiModCvTerm, ModificationCategory category)	Constructor for a reference modification.

Uses of ModificationCategory in com.compomics.util.parameters.identification.tool_specific

Methods in com.compomics.util.parameters.identification.tool_specific that return types with arguments of type ModificationCategory

Modifier and Type	Method	Description
ArrayList<ModificationCategory>	MetaMorpheusParameters.getGPtmCategories()	Returns the modification categories to include in the G-PTM search.

Method parameters in com.compomics.util.parameters.identification.tool_specific with type arguments of type ModificationCategory

Modifier and Type	Method	Description
void	MetaMorpheusParameters.setGPtmCategories(ArrayList<ModificationCategory> gPtmCategories)	Set the modification categories to include in the G-PTM search.